Bioconductor Packages

Nearest Neighbor Detection for Bioconductor Packages

Singular Value Decomposition for Bioconductor Packages

interface to python sklearn via Rstudio reticulate

"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oleś M, Lu J et al. - experimental data and complete analysis

Cohort-aware methods for intrinsic molecular subtyping of breast cancer

Category encoding method for selecting feature genes for the classification of single-cell RNA-seq

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

Cytometry dATa anALYSis Tools

CBN2Path: an R/Bioconductor package for the analysis of cancer progression pathways using Conjunctive Bayesian Networks

plot bayesian network inferred from gene expression data based on enrichment analysis results

Carbon Tetrachloride (CCl4) treated hepatocytes

Clustering Deviation Index (CDI)

Co-expression Modules identification Tool

Hub package for the precomputed data of CENTRE and example data

Statistical analysis for the Colony Formation Assay

An R package for analysis of case-control studies in genetic epidemiology

Fast and accurate scRNA-seq cell type identification

CHRONOS: A time-varying method for microRNA-mediated sub-pathway enrichment analysis

CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution

A Package for CLL Gene Expression Data

Methylation data of primary CLL samples in PACE project

Synthesis of microarray-based classification

Add-on to CellNOptR: Discretized time treatments

ODE add-on to CellNOptR

Reliable CNV detection in targeted sequencing applications

Coordinate Covariation Analysis

Annotations for City of Hope CpG Island Analysis Pipeline

Data to support sexually dimorphic and COPD differential analysis for gene expression and methylation.

COSMIC.67

Cost Sensitive Network for node label prediction on graphs with highly unbalanced labelings

COexpression Tables ANalysis

CPSM: Cancer patient survival model

CRC cell line dataset

CRImage a package to classify cells and calculate tumour cellularity

Identification of cell-type-specific spatially variable genes accounting for excess zeros

Candidate Driver Analysis

Calibration curves for targeted proteomics, lipidomics and metabolomics data

A mass spectrometry imaging toolbox for statistical analysis

Datasets and workflows for the Cardinal MSI

This package provides methods for analysing spatial transcriptomics data and for discovering gene clusters

Causal network analysis methods

Coexpression for Transcription Factors using Regulatory Impact Factors and Partial Correlation and Information Theory analysis

Pre-processed data for use with the CellMapper package

Supervised Non-negative Matrix Factorization for Dimensional Reduction in Single-Cell Analysis

Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

Reconstruction, visualization and analysis of branching trajectories

Unbiased Extraction of Single Cell gene signatures using Multiple Correspondence Analysis

Cepo for the identification of differentially stable genes

ChIP-seq Target Databases for TFEA.ChIP

Example data for the ChIPexoQual package, which implements a quality control pipeline for ChIP-exo data